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Grammar-based distance in progressive multiple sequence alignment |
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| Authors: | David J Russell Hasan H Otu Khalid Sayood |
| Institution: | (1) Department of Electrical Engineering, University of Nebraska-Lincoln, 209N WSEC, Lincoln, NE 68588-0511, USA;(2) New England Baptist Bone and Joint Institute, Beth Israel Deaconess Medical Center Genomics Center, Harvard Medical School, Boston, MA 02215, USA |
| Abstract: | BackgroundWe propose a multiple sequence alignment (MSA) algorithm and compare the alignment-quality and execution-time of the proposed algorithm with that of existing algorithms. The proposed progressive alignment algorithm uses a grammar-based distance metric to determine the order in which biological sequences are to be pairwise aligned. The progressive alignment occurs via pairwise aligning new sequences with an ensemble of the sequences previously aligned. |
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